Out now in @naturemethods: Emu, a new method for 16S rRNA @nanopore-based profiling of microbial communities! Great transatlantic collaboration with @kristendcurry, @traingene, et al.. Brief thread follows.

🚀 We’ve launched the Night Science Institute! Our mission: to champion a cultural shift in science toward embracing the creative scientific process –  as a vital complement to rigorous hypothesis testing. Watch the launch video with @ItaiYanai: https://t.co/ynIYSkGh2R

🚀Today we're launching the 'Night Science Institute', a non-profit to lead a cultural shift in science! You may say we're dreamers, but we think we're not the only ones. Perhaps today you will join us to make the Day Science and Night Science parts of the process live as one! 😉

Excited to share our paper on somatic variant calling in HLA genes and genes related to antigen presentation across a cohort of 136 patients with diffuse gliomas published in @CIR_AACR: https://t.co/5NWRoGjXva A thread ... #Bioinformatics #Immunology #CancerResearch

I have been listening to EconTalk since I was an undergraduate student. I listened to the first episode, with Milton Friedman, within the first or second month after it was placed online. A great deal of knowledge was acquired by listening to it.

In March last year, at the age of 35, I was diagnosed with advanced stage III rectal cancer with a metastasis in my liver. This was a shock: I had no family history, and none of the doctors suspected it. In fact, I'd had a negative occult blood test when I went to ER with severe

A decade ago, we had thousands of bacterial genomes. Now, we have millions. How to scale computational methods? Our paper in @naturemethods answers this: use evolutionary history to guide compression and search. …From terabytes to tens of GBs… w/@Baym @ZaminIqbal et al. 🧵1/

The 3rd annual Symposium on Big Data Algorithms for Biology (BDBio) is happening this May! Join us for insightful talks and discussions on comp-bio topics Register, submit abstract, and see program details at https://t.co/j3Li1tca2i @iiscbangalore @cdsiisc @CBR_IISc

We found that activating programmed necrosis through genetic or pharmacological interventions might be an effective anti-cancer-strategy in pancreatic cancer. Thanks to all collaborators and funders! @CancerInflam @HHU_de @MaxReichertMD https://t.co/C1otFrAVN4

It’s been a tough few weeks. My 10yo daughter was diagnosed with a very rare, aggressive cancer called interdigitating dendritic cell sarcoma (IDCS). I’m reaching out to identify clinicians/patients who have encountered pediatric IDCS, indeterminate dendritic cell histiocytosis

Vote for your favorite EconTalk episodes of 2024! (And please RT):

I finally solved the mystery of why there are so many cryptic lineages in Northern Ohio. This is a mystery I’ve been working on for the last 18 months. 1/

New method speeds up genome alignment of complete and near-complete genome assemblies in minimap2. Can also be useful for faster read mapping Github: https://t.co/odCWHHIDHI DOI: https://t.co/Rm1Xa4PPHE Led by @GhanshyamChand5, collab with @sanchit_misra @wasim_galaxy @intel

Preprint alert 🚨 Cautions in the use of @nanopore sequencing to map DNA modifications: officially reported “accuracy” ≠ reliable mapping in real applications. We performed a critical assessment of nanopore sequencing (across different versions of models) for the detection of

This is the best paper written so far about the impact of AI on scientific discovery

I am excited to share our latest research findings with you. We have identified a new group of neurodevelopmental disorders, which we are calling "TRICopathies," caused by de novo mutations in genes encoding the subunits of the TRiC complex. 1/8 https://t.co/CNNYDFGLLU

I'm going to be advertising a PhD studentship (open to international students) working on long read pangenome / assembly algorithms in bacteria. Would suit someone with maths/compsci background. Aptitude and interest more important than experience. Advert to follow. Pls RT!

Daria Frolova's paper in plasmid relatedness now out in MGen! She uses rearrangement distances & shared seq content to build a relatedness network of plasmids, identifies hubs which are likely transposons, and then clusters related plasmids. https://t.co/fG0GCYqKZO @MicrobioSoc

As always, thanks to all colleagues and coworkers who contributed to the manuscript!

If you are working in the field of outbreak investigation and would try or collaborate on the further validation / development of NanoCore, please reach out!

Potential future work: Integrate support for assembly-based isolate comparisons, leveraging the accuracy of R10 chemistry flow cells; and extend the supported distance metrics beyond the bacterial core genome.